{"id":"W2954785163","doi":"10.1016/j.cell.2019.06.001","title":"Pervasive Chromatin-RNA Binding Protein Interactions Enable RNA-Based Regulation of Transcription","year":2019,"lang":"en","type":"article","venue":"Cell","topic":"RNA Research and Splicing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":419,"is_retracted":false,"has_abstract":false,"ca_institutions":"Université de Montréal; Montreal Clinical Research Institute","funders":"National Institute of Diabetes and Digestive and Kidney Diseases; National Institute of General Medical Sciences; National Cancer Institute; National Institutes of Health; National Human Genome Research Institute; Wuhan University; National Natural Science Foundation of China","keywords":"Biology; Chromatin; RNA-binding protein; RNA splicing; Genetics; Promoter; Transcription (linguistics); ChIA-PET; RNA; Transcription factor; Computational biology; Regulation of gene expression; Transcriptional regulation; Gene; Chromatin remodeling; Gene expression","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009897623,0.00006368767,0.00007450814,0.00005078765,0.00003934509,0.00001236376,0.00007268782,0.00005235909,0.0001602275],"category_scores_gemma":[0.00001766381,0.00006137189,0.00006282709,0.00006494176,0.00001832935,0.00000697267,0.00001242597,0.00006039843,0.00003998642],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001851937,"about_ca_system_score_gemma":0.0000553702,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003426503,"about_ca_topic_score_gemma":0.000009556806,"domain_scores_codex":[0.9994614,0.00003596789,0.0001233247,0.0001484086,0.00009787885,0.000133073],"domain_scores_gemma":[0.9996479,0.000006528607,0.00006456515,0.0001758914,0.00006746759,0.00003760618],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00004891256,0.00003658011,0.0001565375,0.00009250893,0.000007249664,2.604671e-7,0.0000261727,0.0002278166,0.9988242,0.00001017773,0.0001749833,0.0003945763],"study_design_scores_gemma":[0.0004287192,0.0001860245,0.0003402052,0.00004841627,0.000004149695,5.657562e-7,0.00007168133,0.001345184,0.9958291,0.00001446818,0.001666032,0.00006544934],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9935176,0.00005444917,0.001219787,0.00005594493,0.00005895153,0.0002952776,0.000006138908,0.000006047999,0.004785794],"genre_scores_gemma":[0.9842479,0.000006016245,0.0004911879,0.0000133644,0.00004692852,0.00001622539,0.00009507903,0.00001052873,0.01507278],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01028698,"threshold_uncertainty_score":0.2502673,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01213616431612615,"score_gpt":0.2471469800560293,"score_spread":0.2350108157399031,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}